TreatCFM001467's detailed annotation
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Protein: Yellow color--query protein Green color--interaction proteins. Interaction line: Pink--proteins own interaction and positive co-expression relationship with target protein Blue--proteins own interaction and negative co-expression relationship with target protein Orange--proteins own interaction and protein-protein relationship with target protein |
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Module annotation (GSEA enrichment result)
| Function Annotation | FDR | Gene Ontolog |
|---|---|---|
| GTP cyclohydrolase I activity | 0.002024381 | GO:0003934 |
| RNA lariat debranching enzyme activity | 0.002024381 | GO:0008419 |
| 6-hydroxymethyl-dihydropterin diphosphate biosynthesis I | 0.002659181 | plantCyc |
| tetrahydrofolate biosynthesis II | 0.005842855 | plantCyc |
| tetrahydrobiopterin biosynthetic process | 0.006424245 | GO:0006729 |
| tetrahydrofolate biosynthetic process | 0.006424245 | GO:0046654 |
| 7,8-dihydroneopterin 3'-triphosphate biosynthetic process | 0.006424245 | GO:0035998 |
| Folate biosynthesis | 0.008502467 | KEGG pathway |
| RNA modification | 0.016367305 | GO:0009451 |
| zinc ion binding | 0.020344995 | GO:0008270 |
| RNA phosphodiester bond hydrolysis, endonucleolytic | 0.023852324 | GO:0090502 |
| mRNA splicing, via spliceosome | 0.031376631 | GO:0000398 |
| protein homodimerization activity | 0.031740633 | GO:0042803 |
| RNA transport | 0.040243127 | KEGG pathway |
| embryo development ending in seed dormancy | 0.045985392 | GO:0009793 |
Module member annotation
| Gene ID | Ortholog in Arabidopsis (Blast E-value) | Annotation in Arabidopsis |
|---|---|---|
| CRO_T005759 | AT1G30550 (4.00E-55) | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein |
| CRO_T008828 | AT2G03880 (0) | REME1|required for efficiency of mitochondrial editing 1 |
| CRO_T009950 | AT1G06210 (7.00E-41) | ENTH/VHS/GAT family protein |
| CRO_T010828 | AT5G39350 (5.00E-104) | Tetratricopeptide repeat (TPR)-like superfamily protein |
| CRO_T020517 | AT3G07270 (3.00E-160) | GTP cyclohydrolase I |
| CRO_T025620 | AT4G31770 (5.00E-157) | ATDBR1|DEBRANCHING ENZYME 1 |
Direct connection functional modules
| Module ID | Function Annotation | Overlap condition |
|---|---|---|
| TreatCFM000023 | Transcription_related, Transcription regulator: DDT hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds nitrogen compound metabolic process transferase activity, transferring acyl groups intracellular protein transport | details |
| TreatCFM000054 | low-affinity nitrate transport low-affinity nitrate transmembrane transporter activity mitotic spindle assembly checkpoint Transcription_related, Transcription factor: bZIP oligopeptide transport Cell cycle Amino sugar and nucleotide sugar metabolism | details |
| TreatCFM000056 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds Protein_kinases_phosphatases, PPC:4.4.1: Unknown Function Kinase nitrogen compound metabolic process transferase activity, transferring acyl groups intracellular protein transport | details |
| TreatCFM000118 | Ubiquitin_Proteasome_system, DUB: JAMM formation of glycosidic bonds, GlycosylTransferases: GTnc | details |
| TreatCFM000209 | intracellular Ubiquitin_Proteasome_system, DUB: OTU | details |
| TreatCFM000252 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds nitrogen compound metabolic process transferase activity, transferring acyl groups intracellular protein transport | details |
| TreatCFM000269 | intracellular COP9 signalosome Ubiquitin_Proteasome_system, DUB: JAMM cullin deneddylation GTP binding small GTPase mediated signal transduction intracellular protein transport | details |
| TreatCFM000273 | xyloglucan biosynthetic process endomembrane system organization fucose biosynthetic process formation of glycosidic bonds, GlycosylTransferases: GTnc integral component of Golgi membrane salicylic acid mediated signaling pathway unidimensional cell growth transferase activity, transferring glycosyl groups aerobic respiration I (cytochrome c) aerobic respiration III (alternative oxidase pathway) NAD/NADH phosphorylation and dephosphorylation xyloglucan biosynthesis intracellular protein transport | details |
| TreatCFM000274 | non-hydrolytic cleavage of glycosidic bonds, Polysaccharide Lyases: PL4 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds nitrogen compound metabolic process transferase activity, transferring acyl groups Purine metabolism intracellular protein transport | details |
| TreatCFM000276 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K xyloglucan biosynthetic process defense response, incompatible interaction endomembrane system organization activation of MAPK activity fucose biosynthetic process formation of glycosidic bonds, GlycosylTransferases: GTnc MAP kinase kinase activity aerobic respiration I (cytochrome c) aerobic respiration III (alternative oxidase pathway) NAD/NADH phosphorylation and dephosphorylation xyloglucan biosynthesis salicylic acid mediated signaling pathway DNA recombination unidimensional cell growth MAPK signaling pathway - plant MAP kinase activity MAPK cascade integral component of Golgi membrane | details |
| TreatCFM000278 | cellular component organization Homologous recombination single-organism cellular process lipid transporter activity MAP kinase kinase activity activation of MAPK activity defense response, incompatible interaction Protein_kinases_phosphatases, PPC:4.1.4: MAP2K cellular response to DNA damage stimulus MAP kinase activity lipid transport Lysosome adhesion to carbohydrates, Carbohydrate-Binding Modules: CBM57 Protein_kinases_phosphatases, PPC:1.2.2: Receptor Like Cytoplasmic Kinase VII MAPK cascade DNA metabolic process MAPK signaling pathway - plant DNA repair | details |
| TreatCFM000362 | intracellular protein transport | details |
| TreatCFM000385 | xyloglucan biosynthetic process endomembrane system organization fucose biosynthetic process | details |
| TreatCFM000394 | protein N-glycosylation (eukaryotic, high mannose) adhesion to carbohydrates, Carbohydrate-Binding Modules: CBM57 formation of glycosidic bonds, GlycosylTransferases: GTnc hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Toll and Imd signaling pathway root epidermal cell differentiation regulation of salicylic acid metabolic process cell wall macromolecule catabolic process glutaminyl-tRNAGln biosynthesis via transamidation postreplication repair protein K63-linked ubiquitination glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity DNA topoisomerase activity mitochondrial translation response to nitrate Ubiquitin_Proteasome_system, E2: UBC chitin catabolic process multidimensional cell growth glutamyl-tRNA(Gln) amidotransferase complex Aminoacyl-tRNA biosynthesis Homologous recombination N-Glycan biosynthesis response to heat chitinase activity response to water deprivation response to cytokinin cellulose biosynthetic process response to salt stress ubiquitin protein ligase binding transferase activity, transferring hexosyl groups | details |
| TreatCFM000516 | intracellular fucose biosynthetic process xyloglucan biosynthetic process endomembrane system organization formation of glycosidic bonds, GlycosylTransferases: GTnc integral component of Golgi membrane | details |
| TreatCFM000568 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K xyloglucan biosynthetic process defense response, incompatible interaction activation of MAPK activity fucose biosynthetic process endomembrane system organization formation of glycosidic bonds, GlycosylTransferases: GTnc MAP kinase kinase activity aerobic respiration I (cytochrome c) aerobic respiration III (alternative oxidase pathway) NAD/NADH phosphorylation and dephosphorylation xyloglucan biosynthesis integral component of Golgi membrane MAPK signaling pathway - plant MAP kinase activity salicylic acid mediated signaling pathway unidimensional cell growth MAPK cascade | details |
| TreatCFM000666 | beta-N-acetylhexosaminidase activity UDP-glucosyltransferase activity hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Amino sugar and nucleotide sugar metabolism phosphoenolpyruvate carboxykinase (ATP) activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds sulfotransferase activity gluconeogenesis I Cutin, suberine and wax biosynthesis | details |
| TreatCFM000690 | cellular metabolic process | details |
| TreatCFM000703 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant Transcription_related, Transcription factor: FAR1 intracellular protein transport | details |
| TreatCFM000704 | Transcription_related, Transcription factor: FAR1 intracellular protein transport intracellular | details |
| TreatCFM000710 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity binding MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant intracellular protein transport | details |
| TreatCFM000751 | RNA transport nuclear matrix nucleobase-containing compound transmembrane transporter activity Protein_kinases_phosphatases, PPC:4.5.1: MAPK Family Ubiquitin_Proteasome_system, DUB: USP tRNA re-export from nucleus meristem initiation tRNA binding thiol-dependent ubiquitin-specific protease activity nuclear pore Ran GTPase binding GTPase activator activity Endocytosis flower development protein deubiquitination | details |
| TreatCFM000764 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K activation of MAPK activity defense response, incompatible interaction MAP kinase kinase activity | details |
| TreatCFM000772 | intracellular protein transport intracellular | details |
| TreatCFM000820 | urate degradation to allantoin I formation of glycosidic bonds, GlycosylTransferases: GTnc intracellular protein transport intracellular transferase activity | details |
| TreatCFM000833 | Protein_kinases_phosphatases, PPC:1.6.2: Plant External Response Like Kinase RNA lariat debranching enzyme activity NF-kappa B signaling pathway | details |
| TreatCFM000837 | Mismatch repair mismatched DNA binding inositol phosphate metabolic process mitochondrial genome maintenance mitochondrial DNA metabolic process Transcription_related, Transcription factor: SBP inositol trisphosphate kinase activity lipid-dependent phytate biosynthesis II (via Ins(1,3,4)P3) 1D-myo-inositol hexakisphosphate biosynthesis III (Spirodela polyrrhiza) intracellular response to heat intracellular protein transport | details |
| TreatCFM000848 | hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc intracellular mannosyl-oligosaccharide glucosidase activity N-Glycan biosynthesis oligosaccharide metabolic process protein N-linked glycosylation endoplasmic reticulum membrane DNA-directed RNA polymerase activity small GTPase mediated signal transduction | details |
| TreatCFM000871 | intracellular GTP binding small GTPase mediated signal transduction intracellular protein transport | details |
| TreatCFM000881 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant intracellular protein transport | details |
| TreatCFM000913 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant intracellular protein transport | details |
| TreatCFM000938 | adhesion to carbohydrates, Carbohydrate-Binding Modules: CBM57 hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc Regulation of actin cytoskeleton chitinase activity polysaccharide binding response to nitrate cellular component organization root epidermal cell differentiation regulation of salicylic acid metabolic process cell wall macromolecule catabolic process chitin catabolic process multidimensional cell growth response to heat cellulose biosynthetic process response to cytokinin response to water deprivation response to salt stress single-organism cellular process | details |
| TreatCFM001026 | formation of glycosidic bonds, GlycosylTransferases: GTnc 1,3-β-D-glucan biosynthesis Human papillomavirus infection Nucleotide excision repair MicroRNAs in cancer gamma-tubulin complex intracellular 1,3-beta-D-glucan synthase complex ribonuclease III activity GTP binding nuclease activity ARF guanyl-nucleotide exchange factor activity 1,3-beta-D-glucan synthase activity (1->3)-beta-D-glucan biosynthetic process cytoplasmic microtubule organization regulation of ARF protein signal transduction microtubule nucleation nucleic acid metabolic process RNA phosphodiester bond hydrolysis, endonucleolytic microtubule positive regulation of GTPase activity RNA processing | details |
| TreatCFM001050 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant intracellular protein transport | details |
| TreatCFM001097 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K defense response, incompatible interaction activation of MAPK activity MAP kinase kinase activity MAP kinase activity MAPK cascade MAPK signaling pathway - plant intracellular protein transport | details |
| TreatCFM001222 | intracellular protein transport | details |
| TreatCFM001229 | Signaling pathways regulating pluripotency of stem cells adhesion to carbohydrates, Carbohydrate-Binding Modules: CBM57 hydrolysis and/or rearrangement of glycosidic bonds, Glycoside Hydrolases: GHnc chitinase activity thiol-dependent ubiquitin-specific protease activity Ubiquitin_Proteasome_system, DUB: USP Smc5-Smc6 complex RNA degradation polysaccharide binding root epidermal cell differentiation regulation of salicylic acid metabolic process cell wall macromolecule catabolic process response to nitrate seed development multidimensional cell growth chitin catabolic process protein deubiquitination response to heat cellulose biosynthetic process response to water deprivation response to cytokinin response to salt stress DNA repair ubiquitin-dependent protein catabolic process | details |
| TreatCFM001383 | Protein_kinases_phosphatases, PPC:4.1.4: MAP2K DNA replication-independent nucleosome assembly defense response, incompatible interaction activation of MAPK activity nucleosome binding MAP kinase kinase activity MAP kinase activity MAPK cascade | details |
| TreatCFM001399 | intracellular | details |
| TreatCFM001425 | RNA transport nuclear pore inner ring protein import into nucleus, docking nuclear pore organization DNA topological change DNA topoisomerase type I activity structural constituent of nuclear pore Homologous recombination intracellular protein transport | details |
| TreatCFM001466 | RNA lariat debranching enzyme activity zinc ion binding GTP cyclohydrolase I activity 6-hydroxymethyl-dihydropterin diphosphate biosynthesis I Protein_kinases_phosphatases, PPC:1.13.3: Leucine Rich Repeat Kinase III tau-protein kinase activity tetrahydrofolate biosynthesis II tetrahydrofolate biosynthetic process tetrahydrobiopterin biosynthetic process 7,8-dihydroneopterin 3'-triphosphate biosynthetic process Folate biosynthesis RNA modification RNA phosphodiester bond hydrolysis, endonucleolytic mRNA splicing, via spliceosome RNA transport protein homodimerization activity embryo development ending in seed dormancy | details |
| TreatCFM001484 | fucose biosynthetic process endomembrane system organization xyloglucan biosynthetic process formation of glycosidic bonds, GlycosylTransferases: GTnc polyamine transmembrane transporter activity L-amino acid transmembrane transporter activity polyamine transmembrane transport aerobic respiration I (cytochrome c) aerobic respiration III (alternative oxidase pathway) NAD/NADH phosphorylation and dephosphorylation xyloglucan biosynthesis salicylic acid mediated signaling pathway integral component of Golgi membrane unidimensional cell growth amino acid transmembrane transport Purine metabolism antiporter activity transferase activity, transferring glycosyl groups | details |
| TreatCFM001498 | 7,8-dihydroneopterin 3'-triphosphate biosynthetic process tetrahydrofolate biosynthetic process tetrahydrobiopterin biosynthetic process GTP cyclohydrolase I activity tau-protein kinase activity 6-hydroxymethyl-dihydropterin diphosphate biosynthesis I Protein_kinases_phosphatases, PPC:1.13.3: Leucine Rich Repeat Kinase III phospholipid remodeling (phosphatidylcholine, yeast) tetrahydrofolate biosynthesis II Folate biosynthesis N-acetyltransferase activity 2-Oxocarboxylic acid metabolism Glycerolipid metabolism phosphatidylcholine acyl editing Transcription_related, Transcription factor: ERF benzoate biosynthesis I (CoA-dependent, β-oxidative) cellular amino acid biosynthetic process response to stimulus single-organism process regulation of cellular process protein homodimerization activity transferase activity, transferring acyl groups | details |
| TreatCFM001499 | aerobic respiration Oxidative phosphorylation cytochrome-c oxidase activity hydrogen ion transmembrane transport intracellular protein transport | details |
| TreatCFM001807 | 3-dehydroquinate biosynthesis I 6-hydroxymethyl-dihydropterin diphosphate biosynthesis I GTP cyclohydrolase I activity tetrahydrofolate biosynthetic process tetrahydrobiopterin biosynthetic process translation 7,8-dihydroneopterin 3'-triphosphate biosynthetic process protein homooligomerization tetrahydrofolate biosynthesis II structural constituent of ribosome Folate biosynthesis Biosynthesis of amino acids Ubiquitin_Proteasome_system, E3 adaptor: F-box protein homodimerization activity | details |
| TreatCFM001827 | Fanconi anemia pathway RNA lariat debranching enzyme activity Endocytosis DNA metabolic process RNA phosphodiester bond hydrolysis, endonucleolytic mRNA splicing, via spliceosome DNA biosynthetic process translational initiation cellular response to DNA damage stimulus positive regulation of GTPase activity DNA repair embryo development ending in seed dormancy nucleotidyltransferase activity GTPase activator activity | details |
| TreatCFM001852 | rosmarinic acid biosynthesis I rosmarinic acid biosynthesis II pyrimidine ribonucleosides salvage I 4-hydroxybenzoate biosynthesis I (eukaryotes) hydroxyphenylpyruvate reductase activity glyoxylate reductase (NADP) activity hydroxypyruvate reductase activity beta-tubulin binding oxidative photosynthetic carbon pathway tubulin complex assembly post-chaperonin tubulin folding pathway microtubule cytoskeleton organization GTPase activator activity positive regulation of GTPase activity Carbon metabolism NAD binding cytosol | details |
Expression profiles
 Show details about module gene expression profiling |